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Stéphane CHAILLOU

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Documents

Présentation

Stéphane Chaillou is a research director at the French National Institute for Agricultural, Food and Environmental Research (INRAe). Stéphane is a research fellow at the Micalis Institute (Food Microbiology for Human Health) in Jouy-en-Josas, Paris area, which gathers around 90 scientists whose main objective is to develop studies on microbiology for human health and safety of food. He is stirring and supervising research projects within the Food Microbial Ecology research group (~10 people) and co-directs a Master of Science (MSc) at the BioSphera graduate school of Paris-Saclay University. Stephane’s research work is focusing on genomics of food-borne bacteria and on the role of microbial diversity in food ecology. One of his strategy is to implement statistical and bioinformatic analysis of large sampling survey for describing diversity of food microbiomes. He is using the prediction of microbiomes fluxes along the food chain to assess food health and sustainability issues link to microbiomes such as food spoilage, biopreservation or fermentation. Recently, he has been implementing meta-omics data analysis to characterize microbial metabolic interactions in foods using synthetic ecology strategies. At the Paris-Saclay University and within the framework of the BGE Master program (Biodiversity, Genomics and Environment) that he co-directs, Stéphane teaches metagenomics and molecular ecology to students with genomics and microbiology backgrounds.

Publications

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Holistic integration of omics data reveals the drivers that shape the ecology of microbial meat spoilage scenarios

Simon Poirier , Gwendoline Coeuret , Marie-Christine Champomier-Vergès , Marie-Hélène Desmonts , Dalal Werner
Frontiers in Microbiology, 2023, 14, ⟨10.3389/fmicb.2023.1286661⟩
Article dans une revue hal-04282392v1

Combination of High-Pressure Treatment at 500 MPa and Biopreservation with a Lactococcus lactis Strain for Lowering the Bacterial Growth during Storage of Diced Cooked Ham with Reduced Nitrite Salt

Stéphane Chaillou , Mihanta Ramaroson , Gwendoline Coeuret , Albert Rossero , Valérie Anthoine
Microorganisms, 2022, 10 (2), pp.1-14. ⟨10.3390/microorganisms10020456⟩
Article dans une revue hal-03798971v1

Metagenetic characterization of bacterial communities associated with ready-to-eat leafy vegetables and study of temperature effect on their composition during storage

Evanthia Manthou , Gwendoline Coeuret , Stephane Chaillou , George-John Nychas
Food Research International, 2022, 158, pp.111563. ⟨10.1016/j.foodres.2022.111563⟩
Article dans une revue hal-04106534v1
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Discrimination of spoiled beef and salmon stored under different atmospheres by an optoelectronic nose. Comparison with GC-MS measurements

Pauline Claus , Thomas Cattenoz , Sophie Landaud , Stéphane Chaillou , Anne-Claire Peron
Future Foods, 2022, 5, pp.100106. ⟨10.1016/j.fufo.2021.100106⟩
Article dans une revue hal-03708769v1
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Evolution of fungal community associated with ready-to-eat pineapple during storage under different temperature conditions

Evanthia Manthou , Gwendoline Coeuret , Stephane Chaillou , George-John Nychas
Food Microbiology, 2021, 97, pp.103736. ⟨10.1016/j.fm.2021.103736⟩
Article dans une revue hal-03376485v1
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Application of a path-modelling approach for deciphering causality relationships between microbiota, volatile organic compounds and off-odour profiles during meat spoilage

Ngoc-Du Martin Luong , Jeanne-Marie Membré , Louis Coroller , Simon Poirier , Monique Zagorec
International Journal of Food Microbiology, inPress, pp.109208. ⟨10.1016/j.ijfoodmicro.2021.109208⟩
Article dans une revue hal-03210645v1

Nucleotide sequence and analysis of pRC12 and pRC18, two theta-replicating plasmids harbored by Lactobacillus curvatus CRL 705

Lucrecia Terán , Sergio A. Cuozzo , María C. Aristimuño Ficoseco , Silvina Fadda , Stephane Chaillou
PLoS ONE, 2020, 15 (4), ⟨10.1371/journal.pone.0230857⟩
Article dans une revue hal-02921909v1

Large microbiota survey reveals how the microbial ecology of cooked ham is shaped by different processing steps

Marine Zagdoun , Gwendoline Coeuret , Méry N'Dione , Marie-Christine Champomier-Verges , Stephane Chaillou
Food Microbiology, 2020, 91, ⟨10.1016/j.fm.2020.103547⟩
Article dans une revue hal-02921899v1
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Viral metagenomic analysis of the cheese surface: A comparative study of rapid procedures for extracting viral particles

Eric Dugat-Bony , Julien Lossouarn , Marianne de Paepe , Anne-Sophie Sarthou , Yasmina Fedala
Food Microbiology, 2020, 85 (103278), ⟨10.1016/j.fm.2019.103278⟩
Article dans une revue hal-02623156v1
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Large-scale multivariate dataset on the characterization of microbiota diversity, microbial growth dynamics, metabolic spoilage volatilome and sensorial profiles of two industrially produced meat products subjected to changes in lactate concentration and packaging atmosphere

Simon Poirier , Ngoc-Du Martin Luong , Valérie Anthoine , Sandrine Guillou , Jeanne-Marie Membré
Data in Brief, 2020, 30, pp.1-8. ⟨10.1016/j.dib.2020.105453⟩
Article dans une revue hal-02914971v1
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Utilisation des microbiotes comme modèles

Monique Zagorec , Marie Champomier-Vergès , Stéphane Chaillou
Viandes et Produits Carnés, 2020
Article dans une revue hal-02960423v1
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Heme Uptake in Lactobacillus sakei Evidenced by a New Energy Coupling Factor (ECF)-Like Transport System

Emilie Verplaetse , Gwenaëlle André-Leroux , Philippe Duhutrel , Gwendoline Coeuret , Stéphane Chaillou
Applied and Environmental Microbiology, 2020, 86 (18), pp.1-41. ⟨10.1128/AEM.02847-19⟩
Article dans une revue hal-02939244v1
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Biopréservation et hautes pressions : effet sur les communautés microbiennes

Monique Zagorec , Marie Champomier-Vergès , Sandrine Guillou , Stéphane Chaillou
Viandes et Produits Carnés, 2020, pp.1-5
Article dans une revue hal-02960426v1

Biopréservation et hautes pressions: des outils pour la maîtrise des dangers microbiologiques dans les aliments.

Hélène Simonin , Stephane André , Stephane Chaillou , Marie-Christine Champomier-Verges , Carole Feurer
Industries Alimentaires et Agricoles, 2019, 61, pp.34-38
Article dans une revue hal-02618848v1
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Phylogenomic Analysis of Lactobacillus curvatus Reveals Two Lineages Distinguished by Genes for Fermenting Plan-Derived Carbohydrates

Lucrecia C. Terán , Gwendoline Coeuret , Raul Raya , Monique Zagorec , Marie-Christine Champomier-Verges
Genome Biology and Evolution, 2018, 10 (6), pp.1516 - 1525. ⟨10.1093/gbe/evy106⟩
Article dans une revue hal-02621739v1
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Complete and Draft Genome Sequences of Nine Lactobacillus sakei Strains Selected from the Three Known Phylogenetic Lineages and Their Main Clonal Complexes

Valentin Loux , Gwendoline Coeuret , Monique Zagorec , Marie-Christine Champomier-Verges , Stephane Chaillou
Genome Announcements, 2018, 6 (16), 3 p. ⟨10.1128/genomeA.00082-18⟩
Article dans une revue hal-02619093v1
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Deciphering intra-species bacterial diversity of meat and seafood spoilage microbiota using gyrB amplicon sequencing: A comparative analysis with 16S rDNA V3-V4 amplicon sequencing

Simon Poirier , Olivier Rué , Raphaelle Peguilhan , Gwendoline Coeuret , Monique Zagorec
PLoS ONE, 2018, 13 (9), ⟨10.1371/journal.pone.0204629⟩
Article dans une revue hal-02621350v1
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Draft genome sequences of nine strains of brochothrix thermosphacta, carnobacterium divergens, lactobacillus algidus, lactobacillus fuchuensis, lactococcus piscium, leuconostoc gelidum subsp. gasicomitatum, pseudomonas lundensis, and weissella viridescens, a collection of psychrotrophic species involved in meat and seafood spoilage

Simon Poirier , Gwendoline Coeuret , Marie-Christine Champomier-Verges , Stephane Chaillou
Microbiology Resource Announcements, 2018, 6 (24), pp.1-3. ⟨10.1128/genomeA.00479-18⟩
Article dans une revue hal-02618139v1
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Detection of an amplification bias associated to Leuconostocaceae family with a universal primer routinely used for monitoring microbial community structures within food products

Simon Poirier , Olivier Rué , Gwendoline Coeuret , Marie-Christine Champomier-Verges , Valentin Loux
BMC Research Notes, 2018, 11 (1), pp.1-5. ⟨10.1186/s13104-018-3908-2⟩
Article dans une revue hal-02048857v1
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Draft Genome sequence of Lactobacillus curvatus FLEC03, a meat-borne isolate from beef carpaccio packaged in a modified atmosphere

Lucrecia C. Terán , Gwendoline Coeuret , Raul Raya , Marie-Christine Champomier-Verges , Stephane Chaillou
Genome Announcements, 2017, 5 (26), ⟨10.1128/genomeA.00584-17⟩
Article dans une revue hal-02617680v1
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Draft genome sequence of Serratia proteamaculans MFPA44A14-05, a model organism for the study of meat and seafood spoilage

Lysiane Fougy , Gwendoline Coeuret , Marie-Christine Champomier-Verges , Stephane Chaillou
Genome Announcements, 2017, 5 (23), ⟨10.1128/genomeA.00491-17⟩
Article dans une revue hal-02622529v1

Reducing salt in raw pork sausages increases spoilage and correlates with reduced bacterial diversity

Lysiane Fougy , Marie-Hélène Desmonts , Gwendoline Coeuret , Christine Fassel , Erwann Hamon
Applied and Environmental Microbiology, 2016, 82 (13), pp.3928-3939. ⟨10.1128/AEM.00323-16⟩
Article dans une revue hal-02636148v1
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Perspectives in Mathematical Modelling for Microbial Ecology

Matthew J. Wade , Jérôme Harmand , Boumediene Benyahia , Théodore Bouchez , Stephane Chaillou
Ecological Modelling, 2016, 321 (64-74), pp.64-74. ⟨10.1016/j.ecolmodel.2015.11.002⟩
Article dans une revue hal-01227423v1

Selection of bioprotective cultures for preventing cold-smoked salmon spoilage

Françoise Leroi , Josiane Cornet , Frédérique Chevalier , Mireille Cardinal , Gwendoline Coeuret
International Journal of Food Microbiology, 2015, 213, pp.79-87. ⟨10.1016/j.ijfoodmicro.2015.05.005⟩
Article dans une revue hal-01536518v1
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La connaissance approfondie des communautés bactériennes des aliments et ses conséquences pour l’utilisation de la biopréservation

Monique M. Zagorec , Marie-Christine Champomier Verges , Stephane S. Chaillou , Sabine Leroy , S. Christieans
Innovations Agronomiques, 2015, 44, pp.15-24. ⟨10.15454/1.462262826089343E12⟩
Article dans une revue hal-02641750v1
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Phenotypic and genotypic characterization of peptidoglycan hydrolases of [i]Lactobacillus sakei[/i]

Afef Najjari , Houda Amairi , Stephane Chaillou , Diego Mora , Abdellatif Boudabous
Journal of Advanced Research, 2015, 7 (1), ⟨10.1016/j.jare.2015.04.004⟩
Article dans une revue hal-01204469v1
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High genetic diversity among strains of the unindustrialized lactic acid bacterium carnobacterium maltaromaticum in dairy products as revealed by multilocus sequence typing

Abdur Rahman , Catherine Cailliez-Grimal , Cyril Bontemps , Sophie Payot , Stephane Chaillou
Applied and Environmental Microbiology, 2014, 80 (13), pp.3920-3929. ⟨10.1128/AEM.00681-14⟩
Article dans une revue hal-01190026v1
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A polyphasic approach to study the dynamics of microbial population of an organic wheat sourdough during its conversion to gluten-free sourdough

Emilie Lhomme , Sandra Mezaire , Maren Bonnand Ducasse , Hubert Chiron , Marie-Christine Champomier-Verges
International Microbiology, 2014, 17 (1), pp.1-9. ⟨10.2436/20.1501.01.202⟩
Article dans une revue hal-01190027v1

Quantification and efficiency of Lactobacillus sakei strain mixtures used as protective cultures in ground beef

Stephane Chaillou , S Christieans , M Rivollier , Isabelle Lucquin , Marie-Christine Champomier-Verges
Meat Science, 2014, 97 (3), pp.332-338. ⟨10.1016/j.meatsci.2013.08.009⟩
Article dans une revue hal-01053883v1

Origin and ecological selection of core and food-specific bacterial communities associated with meat and seafood spoilage

Stephane Chaillou , Aurélie Chaulot-Talmon , Hélène Caekebeke , Mireille Cardinal , Souad Christieans
The International Society of Microbiologial Ecology Journal, 2014, 9 (5), pp.1105-1118. ⟨10.1038/ismej.2014.202⟩
Article dans une revue hal-01204375v1

Catabolism of N -Acetylneuraminic Acid, a Fitness Function of the Food-Borne Lactic Acid Bacterium Lactobacillus sakei, Involves Two Newly Characterized Proteins

Jamila Anba-Mondoloni , Stephane Chaillou , Monique Zagorec , Marie-Christine M.-C. Champomier-Verges
Applied and Environmental Microbiology, 2013, 79 (6), pp.2012-2018. ⟨10.1128/AEM.03301-12⟩
Article dans une revue hal-04310418v1
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Population genetics of [i]Lactobacillus sakei[/i] reveals three lineages with distinct evolutionary histories

Stephane Chaillou , Isabelle Lucquin , Afef Najjari , Monique Zagorec , Marie-Christine Champomier-Verges
PLoS ONE, 2013, 8 (9), ⟨10.1371/journal.pone.0073253⟩
Article dans une revue hal-01189719v1
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Complete chromosome sequence of Carnobacterium maltaromaticum LMA 28.

Catherine C. Cailliez-Grimal , Stephane S. Chaillou , Jamila J. Anba-Mondoloni , Valentin Loux , Muhammad Inam M. I. Afzal
Genome Announcements, 2013, 1 (1), pp.1-2. ⟨10.1128/genomeA.00115-12⟩
Article dans une revue hal-00939584v1

Catabolism of N-Acetylneuraminic Acid, a Fitness Function of the Food-Borne Lactic Acid Bacterium Lactobacillus sakei, Involves Two Newly Characterized Proteins

Jamila Anba-Mondoloni , Stephane Chaillou , Monique Zagorec , Marie-Christine Champomier-Verges
Applied and Environmental Microbiology, 2013, 79 (6), pp.2012-2018. ⟨10.1128/AEM.03301-12⟩
Article dans une revue hal-01003325v1

Intraspecies diversity of Lactobacillus sakei response to oxidative stress and variability of strain performance in mixed strains challenges

Morgan Guilbaud , Monique Zagorec , Stephane Chaillou , Marie-Christine Champomier-Verges
Food Microbiology, 2012, 29 (2), pp.197 - 204. ⟨10.1016/j.fm.2011.07.011⟩
Article dans une revue hal-01003446v1

Fingerprint of lactic acid bacteria population in beef carpaccio is influenced by storage process and seasonal changes

Isabelle Lucquin , Monique Zagorec , Marie-Christine Champomier-Verges , Stephane Chaillou
Food Microbiology, 2012, 29 (2), pp.187 - 196. ⟨10.1016/j.fm.2011.08.001⟩
Article dans une revue hal-01003445v1
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Behavior of the meat-borne bacterium Lactobacillus sakei during its transit through the gastrointestinal tracts of axenic and conventional mice

Fabrizio Chiaramonte , Sebastien Blugeon , Stephane Chaillou , Philippe Langella , Monique Zagorec
Applied and Environmental Microbiology, 2009, 75 (13), pp.4498-4505. ⟨10.1128/AEM.02868-08⟩
Article dans une revue hal-01190025v1
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Intraspecies genomic diversity and natural population structure of the meat-borne lactic acid bacterium Lactobacillus sakei

Stephane Chaillou , Marie Daty , Fabienne F. Baraige , Anne Marie Dudez , Patricia Anglade
Applied and Environmental Microbiology, 2009, 75 (4), pp.970-980. ⟨10.1128/AEM.01721-08⟩
Article dans une revue hal-01190024v1

Identification of Lactobacillus sakei genes induced during meat fermentation and their role in survival and growth

Eric Hüfner , Tobias Markieton , Stephane S. Chaillou , Anne-Marie Crutz-Le Coq , Monique Zagorec
Applied and Environmental Microbiology, 2007, 73 (8), pp.2522-2531. ⟨10.1128/AEM.02396-06⟩
Article dans une revue hal-02662930v1
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AGMIAL: implementing an annotation strategy for prokaryote genomes as a distributed system

K. Bryson , Valentin Loux , Robert R. Bossy , P. Nicolas , Stephane S. Chaillou
Nucleic Acids Research, 2006, 34 (12), pp.3533-3545. ⟨10.1093/nar/gkl471⟩
Article dans une revue hal-02665192v1
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Du génome de Lactobacillus sakei à la bioconservation des produits carnés

Monique Zagorec , Stephane Chaillou , Marie-Christine Champomier-Verges , Anne-Marie Le Coq
La revue française de la recherche en viandes et produits carnés, 2006, 25 (3), pp.1-3
Article dans une revue hal-01190029v1

Lactobacillus sakei, une bactérie atypique, vieille compagne de l’homme

Stephane S. Chaillou , Marie-Christine Champomier Verges , Anne-Marie Crutz-Le Coq , Monique Zagorec
INRA Mensuel, 2006, 126, pp.24-30
Article dans une revue hal-02656226v1

Phenotypic and genotypic identification of lactic acid bacteria isolated from a small-scale facility producing traditional dry sausages

Salim Ammor , Cinta Rachman , Stephane S. Chaillou , Hervé Prevost , Xavier Dousset
Food Microbiology, 2005, 22 (5), pp.387-382. ⟨10.1016/j.fm.2004.11.005⟩
Article dans une revue hal-02680364v1

The complete genome sequence of the meat-borne lactic acid bacterium Lactobacillus sakei 23K

Stephane S. Chaillou , Marie-Christine Champomier Verges , Monique Cornet , Anne-Marie Crutz-Le Coq , Anne-Marie Dudez
Nature Biotechnology, 2005, 23 (12), pp.1527-1533. ⟨10.1038/nbt1160⟩
Article dans une revue hal-02683108v1

Characterization and selection of Lactobacillus sakei strains isolated from traditional dry sausage for their potential use as starter cultures

Salim Ammor , Eric Dufour , Monique Zagorec , Stephane S. Chaillou , Isabelle Chevalier
Food Microbiology, 2005, 22 (6), pp.529-538. ⟨10.1016/j.fm.2004.11.016⟩
Article dans une revue hal-02682925v1

Sakacin P non-producing Lactobacillus sakei strains contain homologues of the sakacin P gene cluster

Trond Møretrø , Christine Naterstad , Ellen Wang , Inga Aasen , Stephane S. Chaillou
Research in Microbiology, 2005, 156 (9), pp.949-960. ⟨10.1016/j.resmic.2005.05.005⟩
Article dans une revue hal-02678806v1
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Whole genome sequencing project of a dairy Propionibacterium freudenreichii subsp. shermanii genome: progress and first bioinformatic analysis

Guillaume Meurice , Daniel Jacob , Catherine Deborde , Stéphane Chaillou , Annette Rouault
Le Lait, 2004, 84 (1-2), pp.15-24. ⟨10.1051/lait:2003041⟩
Article dans une revue hal-00895526v1

Evidence for involvement of at least six proteins in adaptation of Lactobacillus sakei to cold temperatures and addition of NaCl

Anika Marceau , Monique Zagorec , Stephane S. Chaillou , Thérèse Méra , Marie-Christine Champomier Verges
Applied and Environmental Microbiology, 2004, 70 (12), pp.7260-7268. ⟨10.1128/AEM.70.12.7260-7268.2004⟩
Article dans une revue hal-02683183v1

Physical and genetic map of the Lactobacillus sakei 23K chromosome

Anne-Marie Dudez , Stephane S. Chaillou , Lionel Hissler , Régis Stentz , Marie-Christine Champomier Verges
Microbiology, 2002, 148 (2), pp.421-431
Article dans une revue hal-02677706v1

Discovering lactic acid bacteria by genomics

Todd Klaenhammer , Eric Altermann , Fabrizio Arigoni , Alexandre Bolotine , Fred Breidt
Antonie van Leeuwenhoek, 2002, 82 (1-4), pp.29-58
Article dans une revue hal-01190023v1

Lactobacillus sakei: recent developments and future prospects

Marie-Christine Champomier Verges , Stephane S. Chaillou , M. Cornet , Monique M. Zagorec
Research in Microbiology, 2001, 152, pp.839-848
Article dans une revue hal-02669693v1

Contribution of the phosphoenolpyruvate:mannose phosphotransferase system to carbon catabolite repression in Lactobacillus pentosus

Stéphane Chaillou , Pieter Postma , Peter Pouwels
Microbiology, 2001, 147 (3), pp.671-679. ⟨10.1099/00221287-147-3-671⟩
Article dans une revue hal-03376465v1
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Adaptation of Lactobacillus sakei to meat: a new regulatory mechanism of ribose utilization?

Régis Stentz , Monique Cornet , Stéphane Chaillou , Monique Zagorec
Le Lait, 2001, 81 (1-2), pp.131-138. ⟨10.1051/lait:2001117⟩
Article dans une revue hal-00895466v1

Cloning, Sequence Analysis, and Characterization of the Genes Involved in Isoprimeverose Metabolism in Lactobacillus pentosus

Stéphane Chaillou , B. Christien Lokman , Rob Leer , Clara Posthuma , Pieter Postma
Journal of Bacteriology, 1998, 180 (9), pp.2312-2320. ⟨10.1128/JB.180.9.2312-2320.1998⟩
Article dans une revue hal-03376461v1

Functional Expression in Lactobacillus plantarum of xylP Encoding the Isoprimeverose Transporter of Lactobacillus pentosus

Stéphane Chaillou , Pieter Postma , Peter Pouwels
Journal of Bacteriology, 1998, 180 (15), pp.4011-4014. ⟨10.1128/JB.180.15.4011-4014.1998⟩
Article dans une revue hal-03376469v1

Molecular Cloning and Functional Expression in Lactobacillus plantarum 80 of xylT , Encoding the d -Xylose–H + Symporter of Lactobacillus brevis

Stéphane Chaillou , Yeou-Cherng Bor , Carl Batt , Pieter Postma , Peter Pouwels
Applied and Environmental Microbiology, 1998, 64 (12), pp.4720-4728. ⟨10.1128/AEM.64.12.4720-4728.1998⟩
Article dans une revue hal-03376482v1

Regulation of expression of the Lactobacillus pentosus xylAB operon

B Lokman , M Heerikhuisen , R Leer , A van den Broek , Y Borsboom
Journal of Bacteriology, 1997, 179 (17), pp.5391-5397. ⟨10.1128/jb.179.17.5391-5397.1997⟩
Article dans une revue hal-03373849v1